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==Structure of the Citrobacter freundii effector binding domain containing three amino acid substitutions: T103V, S221A and Y264F==
==Structure of the Citrobacter freundii effector binding domain containing three amino acid substitutions: T103V, S221A and Y264F==
<StructureSection load='3kot' size='340' side='right' caption='[[3kot]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
<StructureSection load='3kot' size='340' side='right'caption='[[3kot]], [[Resolution|resolution]] 1.90&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3kot]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/"bacterium_freundii"_braak_1928 "bacterium freundii" braak 1928]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KOT OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KOT FirstGlance]. <br>
<table><tr><td colspan='2'>[[3kot]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Citrobacter_freundii Citrobacter freundii]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KOT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3KOT FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.9&#8491;</td></tr>
<tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[3kos|3kos]]</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene></td></tr>
<tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ampR ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=546 "Bacterium freundii" Braak 1928])</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=3kot FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kot OCA], [https://pdbe.org/3kot PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3kot RCSB], [https://www.ebi.ac.uk/pdbsum/3kot PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3kot ProSAT]</span></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3kot FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kot OCA], [http://pdbe.org/3kot PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kot RCSB], [http://www.ebi.ac.uk/pdbsum/3kot PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kot ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/AMPR_CITFR AMPR_CITFR]] Regulates the expression of the beta-lactamase gene. Represses cephalosporinase (AmpC) in the presence of beta-lactams and induces it in the absence of them.  
[https://www.uniprot.org/uniprot/AMPR_CITFR AMPR_CITFR] Regulates the expression of the beta-lactamase gene. Represses cephalosporinase (AmpC) in the presence of beta-lactams and induces it in the absence of them.
== Evolutionary Conservation ==
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
[[Image:Consurf_key_small.gif|200px|right]]
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</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3kot ConSurf].
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=3kot ConSurf].
<div style="clear:both"></div>
<div style="clear:both"></div>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Hyperproduction of AmpC beta-lactamase (AmpC) is a formidable mechanism of resistance to penicillins and cephalosporins in Gram-negative bacteria such as Pseudomonas aeruginosa and Enterobacteriaceae. AmpC expression is regulated by the LysR-type transcriptional regulator AmpR. ampR and ampC genes form a divergent operon with overlapping promoters to which AmpR binds and regulates the transcription of both genes. AmpR induces ampC by binding to one member of the family of 1,6-anhydro-N-acetylmuramyl peptides, which are cytosolic catabolites of peptidoglycan that accumulate during beta-lactam challenge. To gain structural insights into AmpR regulation, we determined the crystal structure of the effector binding domain (EBD) of AmpR from Citrobacter freundii up to 1.83 A resolution. The AmpR EBD is dimeric and each monomer comprises two subdomains that adopt alpha/beta Rossmann-like folds. Located between the monomer subdomains is a pocket that was found to bind the crystallization buffer molecule 2-(N-morpholino)ethanesulfonic acid. The pocket, together with a groove along the surface of subdomain I, forms a putative effector binding site into which a molecule of 1,6-anhydro-N-acetylmuramyl pentapeptide could be modeled. Amino acid substitutions at the base of the interdomain pocket either were found to render AmpR incapable of inducing ampC (Thr103Val, Ser221Ala and Tyr264Phe) or resulted in constitutive ampC expression (Gly102Glu). While the substitutions that prevented ampC induction did not alter the overall AmpR EBD structure, circular dichroism spectroscopy revealed that the nonconservative Gly102Glu mutation affected EBD secondary structure, confirming previous work suggesting that Gly102Glu induces a conformational change to result in constitutive AmpC production.
Crystal structure of the AmpR effector binding domain provides insight into the molecular regulation of inducible ampc beta-lactamase.,Balcewich MD, Reeve TM, Orlikow EA, Donald LJ, Vocadlo DJ, Mark BL J Mol Biol. 2010 Jul 30;400(5):998-1010. Epub 2010 May 31. PMID:20594961<ref>PMID:20594961</ref>
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3kot" style="background-color:#fffaf0;"></div>


==See Also==
==See Also==
*[[Transcriptional activator|Transcriptional activator]]
*[[Transcriptional activator 3D structures|Transcriptional activator 3D structures]]
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Bacterium freundii braak 1928]]
[[Category: Citrobacter freundii]]
[[Category: Balcewich, M D]]
[[Category: Large Structures]]
[[Category: Mark, B L]]
[[Category: Balcewich MD]]
[[Category: Activator]]
[[Category: Mark BL]]
[[Category: Alpha-beta-sandwich]]
[[Category: Dna-binding]]
[[Category: Transcription]]
[[Category: Transcription regulation]]

Latest revision as of 13:17, 21 February 2024

Structure of the Citrobacter freundii effector binding domain containing three amino acid substitutions: T103V, S221A and Y264FStructure of the Citrobacter freundii effector binding domain containing three amino acid substitutions: T103V, S221A and Y264F

Structural highlights

3kot is a 1 chain structure with sequence from Citrobacter freundii. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 1.9Å
Ligands:
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

AMPR_CITFR Regulates the expression of the beta-lactamase gene. Represses cephalosporinase (AmpC) in the presence of beta-lactams and induces it in the absence of them.

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

3kot, resolution 1.90Å

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